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Conserved domains on  [gi|30680926|ref|NP_187571|]
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Homeodomain-like superfamily protein [Arabidopsis thaliana]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein; transcriptional adapter( domain architecture ID 11492794)

SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain-containing protein| transcriptional adapter facilitates the assembly and activation of the transcriptional machinery at specific gene promoters or enhancer regions; similar to Homo sapiens transcriptional adapter 2-alpha, a component of the ATAC (Ada-Two-A-containing) complex, which is a protein complex involved in regulating chromatin accessibility and gene expression

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
myb_SHAQKYF TIGR01557
myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain ...
 41-91 5.62e-17

myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.


:

Pssm-ID: 130620 [Multi-domain]  Cd Length: 57  Bit Score: 73.21  E-value: 5.62e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 30680926    41 KSRESWTEEEHDKFLEALQLFDR-DW---KKI-EDFVGSK-TVIQIRSHAQKYFLKV 91
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGpDWatpKRIlELMVVDGlTRDQVASHLQKYRLKQ 57
COG5114 super family cl27155
Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];
44-150 6.41e-04

Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];


The actual alignment was detected with superfamily member COG5114:

Pssm-ID: 227445 [Multi-domain]  Cd Length: 432  Bit Score: 40.82  E-value: 6.41e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680926  44 ESWTEEEHDKFLEALQ-LFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKvQKNGTLAHVPPPRPKRKAAHPYPQKASK--- 119
Cdd:COG5114  64 EGWGADEELLLIECLDtLGLGNWEDIADYIGSRAKEEIKSHYLKMYDE-SKYYPLPDITQNIHVPQDEFLEQRRHRIetf 142

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 30680926 120 -----NAQMPLqVSTSFTTTRNGDMPGYASWDDASM 150
Cdd:COG5114 143 elppiNPRKPK-ASNPYCHEIQGYMPGRLEFDVEYM 177
 
Name Accession Description Interval E-value
myb_SHAQKYF TIGR01557
myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain ...
 41-91 5.62e-17

myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.


Pssm-ID: 130620 [Multi-domain]  Cd Length: 57  Bit Score: 73.21  E-value: 5.62e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 30680926    41 KSRESWTEEEHDKFLEALQLFDR-DW---KKI-EDFVGSK-TVIQIRSHAQKYFLKV 91
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGpDWatpKRIlELMVVDGlTRDQVASHLQKYRLKQ 57
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 43-88 1.10e-12

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 61.37  E-value: 1.10e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 30680926    43 RESWTEEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIRSHAQKYF 88
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
43-88 2.28e-09

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 52.23  E-value: 2.28e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 30680926     43 RESWTEEEHDKFLEALQLFD-RDWKKIEDFVGSKTVIQIRSHAQKYF 88
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLL 47
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 45-88 5.11e-09

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 51.04  E-value: 5.11e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 30680926  45 SWTEEEHDKFLEALQLFD-RDWKKIEDFVGSKTVIQIRSHAQKYF 88
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
COG5114 COG5114
Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];
44-150 6.41e-04

Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];


Pssm-ID: 227445 [Multi-domain]  Cd Length: 432  Bit Score: 40.82  E-value: 6.41e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680926  44 ESWTEEEHDKFLEALQ-LFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKvQKNGTLAHVPPPRPKRKAAHPYPQKASK--- 119
Cdd:COG5114  64 EGWGADEELLLIECLDtLGLGNWEDIADYIGSRAKEEIKSHYLKMYDE-SKYYPLPDITQNIHVPQDEFLEQRRHRIetf 142

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 30680926 120 -----NAQMPLqVSTSFTTTRNGDMPGYASWDDASM 150
Cdd:COG5114 143 elppiNPRKPK-ASNPYCHEIQGYMPGRLEFDVEYM 177
RSC8 COG5259
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
 44-79 3.55e-03

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 38.71  E-value: 3.55e-03
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 30680926  44 ESWTEEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQ 79
Cdd:COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQ 315
 
Name Accession Description Interval E-value
myb_SHAQKYF TIGR01557
myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain ...
 41-91 5.62e-17

myb-like DNA-binding domain, SHAQKYF class; This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.


Pssm-ID: 130620 [Multi-domain]  Cd Length: 57  Bit Score: 73.21  E-value: 5.62e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 30680926    41 KSRESWTEEEHDKFLEALQLFDR-DW---KKI-EDFVGSK-TVIQIRSHAQKYFLKV 91
Cdd:TIGR01557   1 KPRVVWTEDLHDRFLQAVQKLGGpDWatpKRIlELMVVDGlTRDQVASHLQKYRLKQ 57
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 43-88 1.10e-12

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 61.37  E-value: 1.10e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 30680926    43 RESWTEEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIRSHAQKYF 88
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLPGRTDNQCKNRWQNYL 46
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
43-88 2.28e-09

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 52.23  E-value: 2.28e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 30680926     43 RESWTEEEHDKFLEALQLFD-RDWKKIEDFVGSKTVIQIRSHAQKYF 88
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGkNNWEKIAKELPGRTAEQCRERWRNLL 47
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 45-88 5.11e-09

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 51.04  E-value: 5.11e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 30680926  45 SWTEEEHDKFLEALQLFD-RDWKKIEDFVGSKTVIQIRSHAQKYF 88
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGkNNWEKIAKELPGRTPKQCRERWRNLL 45
COG5114 COG5114
Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];
44-150 6.41e-04

Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics];


Pssm-ID: 227445 [Multi-domain]  Cd Length: 432  Bit Score: 40.82  E-value: 6.41e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680926  44 ESWTEEEHDKFLEALQ-LFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKvQKNGTLAHVPPPRPKRKAAHPYPQKASK--- 119
Cdd:COG5114  64 EGWGADEELLLIECLDtLGLGNWEDIADYIGSRAKEEIKSHYLKMYDE-SKYYPLPDITQNIHVPQDEFLEQRRHRIetf 142

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 30680926 120 -----NAQMPLqVSTSFTTTRNGDMPGYASWDDASM 150
Cdd:COG5114 143 elppiNPRKPK-ASNPYCHEIQGYMPGRLEFDVEYM 177
RSC8 COG5259
RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / ...
 44-79 3.55e-03

RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227584 [Multi-domain]  Cd Length: 531  Bit Score: 38.71  E-value: 3.55e-03
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 30680926  44 ESWTEEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQ 79
Cdd:COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQ 315
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 46-81 6.79e-03

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 34.21  E-value: 6.79e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 30680926    46 WTEEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIR 81
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGRRTPKQCF 36
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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